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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaatcagggttgcattttattaaagcgagacaaaattttggaaggtattcatactagtaaatccgtgtgttaaaacagttaccttgttcaaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTTGTGTTCATGCTTCTTTATCTCTGGAGCCGAGAATTTCCAAATGCCAACA

Basic information

species Arabidopsis thaliana
transcript AT4G29330.1
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86072451|gb|DR368208.1|DR368208
EST:     GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG                         GTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
genomic: GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTGgtatgtaaag ... caaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
EST: gi|86072452|gb|DR368209.1|DR368209
EST:     GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG                         GTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
genomic: GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTGgtatgtaaag ... caaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
EST: gi|164080059|gb|EL967669.1|EL967669
EST:     GTGGATGATGATCTTTGGATCCTTCACTTCTATTG                         GTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACT
genomic: GTGGATGATGATCTTTGGATCCTTCAC-TCTATTGgtatgtaaag ... caaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACT
EST: gi|86072450|gb|DR368207.1|DR368207
EST:     GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG                         GTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
genomic: GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTGgtatgtaaag ... caaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTT
EST: gi|164029861|gb|ES194661.1|ES194661
EST:     GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG                         GTATTATCAGCCATACCATTTT-CTGGACACCGTTTCTTGGTGTTTCA
genomic: GGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTGgtatgtaaag ... caaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtattcatactagtaaatccgtgtgttaaaacagttaccttgttcaaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTTGTGTTCATGCTTCTTTATCTCTGGAGCCGAGAATTTCCAAATGCCAACA
                                      ccttgttc  CT-rich tract
                                           ttcaaattt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgaatcagggttgcattttattaaagcgagacaaaattttggaaggtattcatactagtaaatccgtgtgttaaaacagttaccttgttcaaatttcagGTATTATCAGTCATACCATTTTTCTGGACACCGTTTCTTGGTGTTTCACTTGTGTTCATGCTTCTTTATCTCTGGAGCCGAGAATTTCCAAATGCCAACA

- - - - - - - - - - -ttaaagc
- - - - - - - - - - - - - - -agacaaa
- - - - - - - - - - - - - - - - - - attttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaca